#include <itkScalarChanAndVeseLevelSetFunction.h>

Inheritance diagram for itk::ScalarChanAndVeseLevelSetFunction< TInputImage, TFeatureImage, TSharedData >:

Collaboration diagram for itk::ScalarChanAndVeseLevelSetFunction< TInputImage, TFeatureImage, TSharedData >:

Detailed Description

template<typename TInputImage, typename TFeatureImage, typename TSharedData = ConstrainedRegionBasedLevelSetFunctionSharedData< TInputImage, TFeatureImage, ScalarChanAndVeseLevelSetFunctionData< TInputImage, TFeatureImage > >>
class itk::ScalarChanAndVeseLevelSetFunction< TInputImage, TFeatureImage, TSharedData >

LevelSet function that computes a speed image based on regional integrals of probabilities.

This class implements a level set function that computes the speed image by integrating values on the image domain.

Author: Mosaliganti K., Smith B., Gelas A., Gouaillard A., Megason S.

Based on the papers:

   "An active contour model without edges"
    T. Chan and L. Vese.
    In Scale-Space Theories in Computer Vision, pages 141-151, 1999.

    "Segmenting and Tracking Fluorescent Cells in Dynamic 3-D
     Microscopy With Coupled Active Surfaces"
     Dufour, Shinin, Tajbakhsh, Guillen-Aghion, Olivo-Marin
     In IEEE Transactions on Image Processing, vol. 14, No 9, Sep. 2005

This code was taken from the Insight Journal paper:

"Cell Tracking using Coupled Active Surfaces for Nuclei and Membranes"
http://www.insight-journal.org/browse/publication/642
https://hdl.handle.net/10380/3055

That is based on the papers:

"Level Set Segmentation: Active Contours without edge"
http://www.insight-journal.org/browse/publication/322
https://hdl.handle.net/1926/1532

and

"Level set segmentation using coupled active surfaces"
http://www.insight-journal.org/browse/publication/323
https://hdl.handle.net/1926/1533

Wiki Examples:

Definition at line 78 of file itkScalarChanAndVeseLevelSetFunction.h.

Public Types
typedef Superclass::ConstFeatureIteratorType	ConstFeatureIteratorType

typedef Superclass::ConstImageIteratorType	ConstImageIteratorType

typedef SmartPointer< const Self >	ConstPointer

typedef FeatureImageType::ConstPointer	FeatureImageConstPointer

typedef Superclass::FeatureImageIteratorType	FeatureImageIteratorType

typedef TFeatureImage	FeatureImageType

typedef Superclass::FeatureIndexType	FeatureIndexType

typedef Superclass::FeatureOffsetType	FeatureOffsetType

typedef Superclass::FeaturePixelType	FeaturePixelType

typedef Superclass::FloatOffsetType	FloatOffsetType

typedef Superclass::GlobalDataStruct	GlobalDataStruct

typedef Superclass::ImageIteratorType	ImageIteratorType

typedef Superclass::InputImageConstPointer	InputImageConstPointer

typedef Superclass::InputImagePointer	InputImagePointer

typedef TInputImage	InputImageType

typedef Superclass::InputIndexType	InputIndexType

typedef Superclass::InputIndexValueType	InputIndexValueType

typedef Superclass::InputPixelType	InputPixelType

typedef Superclass::InputPointType	InputPointType

typedef Superclass::InputRegionType	InputRegionType

typedef Superclass::InputSizeType	InputSizeType

typedef Superclass::InputSizeValueType	InputSizeValueType

typedef Superclass::ListImageType	ListImageType

typedef Superclass::ListPixelConstIterator	ListPixelConstIterator

typedef Superclass::ListPixelIterator	ListPixelIterator

typedef Superclass::ListPixelType	ListPixelType

typedef Superclass::NeighborhoodType	NeighborhoodType

typedef Superclass::PixelType	PixelType

typedef SmartPointer< Self >	Pointer

typedef Superclass::RadiusType	RadiusType

typedef Superclass::ScalarValueType	ScalarValueType

typedef ScalarChanAndVeseLevelSetFunction	Self

typedef Superclass::SharedDataPointer	SharedDataPointer

typedef Superclass::SharedDataType	SharedDataType

typedef ScalarRegionBasedLevelSetFunction < TInputImage, TFeatureImage, TSharedData >	Superclass

typedef Superclass::TimeStepType	TimeStepType

typedef Superclass::VectorType	VectorType

Public Types inherited from itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
typedef ImageRegionConstIterator < FeatureImageType >	ConstFeatureIteratorType

typedef ImageRegionConstIteratorWithIndex < InputImageType >	ConstImageIteratorType

typedef SmartPointer< const Self >	ConstPointer

typedef FeatureImageType::ConstPointer	FeatureImageConstPointer

typedef ImageRegionIteratorWithIndex < FeatureImageType >	FeatureImageIteratorType

typedef Superclass::FeatureImageType	FeatureImageType

typedef Superclass::FeatureIndexType	FeatureIndexType

typedef Superclass::FeatureOffsetType	FeatureOffsetType

typedef Superclass::FeaturePixelType	FeaturePixelType

typedef Superclass::FloatOffsetType	FloatOffsetType

typedef Superclass::GlobalDataStruct	GlobalDataStruct

typedef ImageRegionIteratorWithIndex < InputImageType >	ImageIteratorType

typedef Superclass::InputImageConstPointer	InputImageConstPointer

typedef Superclass::InputImagePointer	InputImagePointer

typedef Superclass::InputImageType	InputImageType

typedef Superclass::InputIndexType	InputIndexType

typedef Superclass::InputIndexValueType	InputIndexValueType

typedef Superclass::InputPixelType	InputPixelType

typedef Superclass::InputPointType	InputPointType

typedef Superclass::InputRegionType	InputRegionType

typedef Superclass::InputSizeType	InputSizeType

typedef Superclass::InputSizeValueType	InputSizeValueType

typedef Image< ListPixelType, itkGetStaticConstMacro(ImageDimension) >	ListImageType

typedef ListPixelType::const_iterator	ListPixelConstIterator

typedef ListPixelType::iterator	ListPixelIterator

typedef std::list< unsigned int >	ListPixelType

typedef Superclass::NeighborhoodType	NeighborhoodType

typedef Superclass::PixelType	PixelType

typedef SmartPointer< Self >	Pointer

typedef Superclass::RadiusType	RadiusType

typedef Superclass::ScalarValueType	ScalarValueType

typedef ScalarRegionBasedLevelSetFunction	Self

typedef Superclass::SharedDataPointer	SharedDataPointer

typedef Superclass::SharedDataType	SharedDataType

typedef RegionBasedLevelSetFunction < TInputImage, TFeatureImage, TSharedData >	Superclass

typedef Superclass::TimeStepType	TimeStepType

typedef Superclass::VectorType	VectorType

Public Types inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
typedef SmartPointer< const Self >	ConstPointer

typedef FeatureImageType::ConstPointer	FeatureImageConstPointer

typedef TFeatureImage	FeatureImageType

typedef FeatureImageType::IndexType	FeatureIndexType

typedef FeatureImageType::OffsetType	FeatureOffsetType

typedef FeatureImageType::PixelType	FeaturePixelType

typedef FeatureImageType::SpacingType	FeatureSpacingType

typedef Superclass::FloatOffsetType	FloatOffsetType

typedef HeavisideFunctionType::ConstPointer	HeavisideFunctionConstPointer

typedef HeavisideStepFunctionBase < InputPixelType, InputPixelType >	HeavisideFunctionType

typedef Superclass::ImageType	ImageType

typedef InputImageType::ConstPointer	InputImageConstPointer

typedef InputImageType::Pointer	InputImagePointer

typedef TInputImage	InputImageType

typedef InputImageType::IndexType	InputIndexType

typedef InputImageType::IndexValueType	InputIndexValueType

typedef InputImageType::PixelType	InputPixelType

typedef InputImageType::PointType	InputPointType

typedef InputImageType::RegionType	InputRegionType

typedef InputImageType::SizeType	InputSizeType

typedef InputImageType::SizeValueType	InputSizeValueType

typedef Superclass::NeighborhoodScalesType	NeighborhoodScalesType

typedef Superclass::NeighborhoodType	NeighborhoodType

typedef Superclass::PixelType	PixelType

typedef SmartPointer< Self >	Pointer

typedef Superclass::RadiusType	RadiusType

typedef PixelType	ScalarValueType

typedef RegionBasedLevelSetFunction	Self

typedef SharedDataType::Pointer	SharedDataPointer

typedef TSharedData	SharedDataType

typedef FiniteDifferenceFunction < TInputImage >	Superclass

typedef double	TimeStepType

typedef FixedArray < ScalarValueType, itkGetStaticConstMacro(ImageDimension) >	VectorType

Public Types inherited from itk::FiniteDifferenceFunction< TInputImage >
typedef SmartPointer< const Self >	ConstPointer

typedef ZeroFluxNeumannBoundaryCondition < ImageType >	DefaultBoundaryConditionType

typedef Vector< float, itkGetStaticConstMacro(ImageDimension) >	FloatOffsetType

typedef TInputImage	ImageType

typedef Vector< PixelRealType, itkGetStaticConstMacro(ImageDimension) >	NeighborhoodScalesType

typedef ConstNeighborhoodIterator < TInputImage, DefaultBoundaryConditionType >	NeighborhoodType

typedef double	PixelRealType

typedef ImageType::PixelType	PixelType

typedef SmartPointer< Self >	Pointer

typedef ConstNeighborhoodIterator < TInputImage >::RadiusType	RadiusType

typedef FiniteDifferenceFunction	Self

typedef LightObject	Superclass

typedef double	TimeStepType

Public Types inherited from itk::LightObject
typedef SmartPointer< const Self >	ConstPointer

typedef SmartPointer< Self >	Pointer

typedef LightObject	Self

Public Member Functions
virtual ::itk::LightObject::Pointer	CreateAnother () const

virtual const char *	GetNameOfClass () const

Public Member Functions inherited from itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
void	UpdatePixel (const unsigned int &idx, NeighborhoodIterator< TInputImage > &iterator, InputPixelType &newValue, bool &status)

Public Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
virtual VectorType	AdvectionField (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

virtual void	CalculateAdvectionImage ()

virtual ScalarValueType	ComputeCurvature (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *gd)

TimeStepType	ComputeGlobalTimeStep (void *GlobalData) const override

virtual PixelType	ComputeUpdate (const NeighborhoodType &neighborhood, void *globalData, const FloatOffsetType &=FloatOffsetType(0.0)) override

virtual ScalarValueType	CurvatureSpeed (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

ScalarValueType	GetAdvectionWeight () const

virtual const FeatureImageType *	GetFeatureImage () const

void *	GetGlobalDataPointer () const override

virtual void	Initialize (const RadiusType &r)

virtual ScalarValueType	LaplacianSmoothingSpeed (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

virtual void	ReleaseGlobalDataPointer (void *GlobalData) const override

void	SetAdvectionWeight (const ScalarValueType &iA)

void	SetDomainFunction (const HeavisideFunctionType *f)

virtual void	SetFeatureImage (const FeatureImageType *f)

void	SetFunctionId (const unsigned int &iFid)

void	SetInitialImage (InputImageType *f)

void	SetSharedData (SharedDataPointer sharedDataIn)

void	UpdateSharedData (bool forceUpdate)

void	SetAreaWeight (const ScalarValueType &nu)

ScalarValueType	GetAreaWeight () const

void	SetLambda1 (const ScalarValueType &lambda1)

ScalarValueType	GetLambda1 () const

void	SetLambda2 (const ScalarValueType &lambda2)

ScalarValueType	GetLambda2 () const

void	SetOverlapPenaltyWeight (const ScalarValueType &gamma)

ScalarValueType	GetOverlapPenaltyWeight () const

virtual void	SetCurvatureWeight (const ScalarValueType c)

ScalarValueType	GetCurvatureWeight () const

void	SetReinitializationSmoothingWeight (const ScalarValueType c)

ScalarValueType	GetReinitializationSmoothingWeight () const

void	SetVolumeMatchingWeight (const ScalarValueType &tau)

ScalarValueType	GetVolumeMatchingWeight () const

void	SetVolume (const ScalarValueType &volume)

ScalarValueType	GetVolume () const

Public Member Functions inherited from itk::FiniteDifferenceFunction< TInputImage >
const NeighborhoodScalesType	ComputeNeighborhoodScales () const

const RadiusType &	GetRadius () const

void	GetScaleCoefficients (PixelRealType vals[ImageDimension]) const

virtual void	InitializeIteration ()

void	SetRadius (const RadiusType &r)

void	SetScaleCoefficients (PixelRealType vals[ImageDimension])

Public Member Functions inherited from itk::LightObject
virtual void	Delete ()

virtual int	GetReferenceCount () const

	itkCloneMacro (Self)

void	Print (std::ostream &os, Indent indent=0) const

virtual void	Register () const

virtual void	SetReferenceCount (int)

virtual void	UnRegister () const noexcept

Static Public Member Functions
static Pointer	New ()

Static Public Member Functions inherited from itk::LightObject
static void	BreakOnError ()

static Pointer	New ()

Static Public Attributes
static const unsigned int	ImageDimension = TFeatureImage::ImageDimension

Static Public Attributes inherited from itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static const unsigned int	ImageDimension = TFeatureImage::ImageDimension

Static Public Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static const unsigned int	ImageDimension

Static Public Attributes inherited from itk::FiniteDifferenceFunction< TInputImage >
static const unsigned int	ImageDimension

Protected Member Functions
ScalarValueType	ComputeExternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx) override

ScalarValueType	ComputeInternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx) override

void	ComputeParameters () override

	ScalarChanAndVeseLevelSetFunction ()

void	UpdateSharedDataInsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange) override

void	UpdateSharedDataOutsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange) override

void	UpdateSharedDataParameters () override

	~ScalarChanAndVeseLevelSetFunction ()

Protected Member Functions inherited from itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
ScalarValueType	ComputeOverlapParameters (const FeatureIndexType &featIndex, ScalarValueType &product) override

	ScalarRegionBasedLevelSetFunction ()

virtual void	UpdateSharedDataInsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange)=0

virtual void	UpdateSharedDataOutsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange)=0

	~ScalarRegionBasedLevelSetFunction ()

Protected Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
virtual ScalarValueType	ComputeExternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx)=0

ScalarValueType	ComputeGlobalTerm (const ScalarValueType &imagePixel, const InputIndexType &inputIndex)

void	ComputeHessian (const NeighborhoodType &it, GlobalDataStruct *globalData)

void	ComputeHImage ()

virtual ScalarValueType	ComputeInternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx)=0

ScalarValueType	ComputeLaplacian (GlobalDataStruct *gd)

virtual ScalarValueType	ComputeOverlapParameters (const FeatureIndexType &featIndex, ScalarValueType &pr)=0

ScalarValueType	ComputeVolumeRegularizationTerm ()

	RegionBasedLevelSetFunction ()

virtual	~RegionBasedLevelSetFunction ()

Protected Member Functions inherited from itk::FiniteDifferenceFunction< TInputImage >
	FiniteDifferenceFunction ()

virtual void	PrintSelf (std::ostream &os, Indent indent) const override

	~FiniteDifferenceFunction () override

Protected Member Functions inherited from itk::LightObject
virtual LightObject::Pointer	InternalClone () const

	LightObject ()

virtual void	PrintHeader (std::ostream &os, Indent indent) const

virtual void	PrintTrailer (std::ostream &os, Indent indent) const

virtual	~LightObject ()

Additional Inherited Members
Static Protected Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static VectorType	InitializeZeroVectorConstant ()

Protected Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
ScalarValueType	m_AdvectionWeight

ScalarValueType	m_AreaWeight

OffsetValueType	m_Center

ScalarValueType	m_CurvatureWeight

HeavisideFunctionConstPointer	m_DomainFunction

FeatureImageConstPointer	m_FeatureImage

unsigned int	m_FunctionId

InputImageConstPointer	m_InitialImage

double	m_InvSpacing [itkGetStaticConstMacro(ImageDimension)]

ScalarValueType	m_Lambda1

ScalarValueType	m_Lambda2

ScalarValueType	m_OverlapPenaltyWeight

ScalarValueType	m_ReinitializationSmoothingWeight

SharedDataPointer	m_SharedData

bool	m_UpdateC

ScalarValueType	m_Volume

ScalarValueType	m_VolumeMatchingWeight

OffsetValueType	m_xStride [itkGetStaticConstMacro(ImageDimension)]

std::slice	x_slice [itkGetStaticConstMacro(ImageDimension)]

Protected Attributes inherited from itk::FiniteDifferenceFunction< TInputImage >
RadiusType	m_Radius

PixelRealType	m_ScaleCoefficients [ImageDimension]

Protected Attributes inherited from itk::LightObject
AtomicInt< int >	m_ReferenceCount

Static Protected Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static double	m_DT

static double	m_WaveDT

static VectorType	m_ZeroVectorConstant